Detection and identification of groups of bacteria

ABSTRACT

The present invention concerns a method for the simultaneous detection of different bacteria, comprising the following steps: coupling one or more species of bacteriophage tail proteins onto a support, incubating the support coupled with the bacteriophage tail proteins with a sample, optionally removing the sample and the bacteria of the sample not bound to the bacteriophage tail proteins, contacting the bacteria bound to the bacteriophage tail proteins with the bacteriophages and/or bacteriophage proteins specifically binding the bacteria to be detected, removing the bacteriophages and/or bacteriophage proteins not bound to the bacteria, and performing the detection reaction by means of an enzyme coupled to the specifically binding bacteriophages and/or bacteriophage proteins or by means of an immuno assay.

[0001] The present invention concerns a method for the simultaneous detection of different bacteria, comprising the following steps: coupling one or more species of bacteriophage tail proteins onto a support, incubating the support coupled with the bacteriophage tail proteins with a sample, optionally removing the sample and the bacteria of the sample not bound to the bacteriophage tail proteins, contacting the bacteria bound to the bacteriophage tail proteins with the bacteriophages and/or bacteriophage proteins specifically binding the bacteria to be detected, removing the bacteriophages and/or bacteriophage proteins not bound to the bacteria, and performing the detection reaction by means of an enzyme coupled to the specifically binding bacteriophages and/or bacteriophage proteins or by means of an immuno assay.

[0002] The rapid and precise detection of bacteria is absolutely essential for checking the hygiene and quality aspects of raw products and processed foodstuffs and for monitoring the hygiene and quality aspect of drinking water and water for industrial uses and the water quality of public baths. In addition detection serves for process monitoring and optimisation as well as quality control in environmental analysis.

[0003] In spite of the enormous economic interest the test methods used at the present time such as for example the “BAM” methods (bacteriological analytical manual) are very intensive in terms of time, labour and equipment. Potential disease germs are sequentially augmented in selective and non-selective media and detected on suitable nutrient media. That is usually followed by biochemical and serological checking so that the entire method takes between 3 and 4 days. For certain situations, for example in relation to hygiene monitoring, it may be necessary to detect entire groups of bacteria, instead of individual bacterial species. That however can also be important when for example the proportion of pathogenic bacteria in a group is very great. The tests can only be carried out by microbiologically trained personnel in suitably equipped laboratories. The consequence of this is that at the present time even large undertakings only test coliform bacteria in house but outsource all other tests, including detection of pathogenic germs. Coliform detection is essentially used as hygiene monitoring, it is generally implemented by way of conventional nutrient medium procedures and thus lasts at least two days.

[0004] The detection of bacteria is mostly effected from biological samples by means of a combination of culture methods. In addition, particularly for precise characterisation, recourse is had to the procedure of phage typing. In that situation culture methods are coupled to the sensitivity of bacteria in relation to typing bacteriophages. Bacteriophages have already been used for about 80 years in phage typing, in which bacteria strains can be determined by means of special classification phages on the basis of standardised systems. A dense bacteria layer on an agar plate of the sample to be investigated, which was obtained by isolation of an individual colony and subsequent multiplication thereof, is coated with suspension of bacteriophages in soft agar. The result is obtained after incubation overnight at the optimum growth temperature of the bacteria, which is usually generally 37° C., by counting out the plaques and checking the plaque morphology.

[0005] More recent alternative methods which make do without a nutrient medium are based in particular on DNA and antibody technologies. In the first-mentioned approach the bacteria are bound to filters and the bacteria DNA hybridised with suitable DNA probes which give a measurement signal or the amplified bacteria DNA is directly sequenced on by means of PCR. In the ELISA procedure bacteria or bacteria constituents are bound by means of monoclonal antibodies and detected by way of enzymatic probes which are coupled to a secondary antibody. Both methods however also require a high level of technical expenditure and an enrichment step is to be implemented beforehand for the required 10⁴ to 10⁶ cells per ml. This means that the time saving in comparison with conventional methods is so small that the stated methods are scarcely used.

[0006] The use of bacteriophages as “biosorbents” for binding of the bacteria to be detected has some decisive advantages over the more recent methods. The phage-bacteria systems have evolved in nature over long periods of time so that the phages recognise their host bacteria in highly specific fashion and with a high level of binding affinity even in complex environments as occur in nature but also in foodstuffs. Time-consuming enrichment cultures in which the germs which are unwanted for the detection procedure such as for example inoculation cultures are frequently also enriched become substantially unnecessary by virtue of the novel method described here. A disadvantage with the previously described phage-based bacteria detection systems however is that they mostly involved highly specific recognition of individual bacterial species and therefore cannot be used for detection of bacteria groups, families or a plurality of species of bacteria.

[0007] Therefore the object of the present invention is to provide a detection method for bacteria, with which different bacteria species can be simultaneously detected. A further object involves the provision of bacteriophage tail proteins which have bacteria binding which is more advantageous for the detection method.

[0008] The object is solved by the subject-matter defined in the claims.

[0009] The invention is described by the following Figures.

[0010]FIGS. 1A and B diagrammatically show group-specific detection. (1A): the bacteriophage tail protein 1 is bound by way of biotin 2 to streptavidin 3 which is covalently joined to the matrix 4. Bacteria from the group 5 to be recognised are specifically bound to the bacteriophage tail proteins 1. (1B): after a washing step the bound bacteria 5 are detected by means of the same bacteriophage tail protein 1 which however this time is coupled to an enzyme 6, for example peroxidase. hv denotes signal development which can be implemented for example by absorption.

[0011]FIGS. 2A and B diagrammatically show group-specific detection. (2A): the bacteriophage tail protein 1 is bound by way of biotin 2 to streptavidin 3 which is covalently joined to the matrix 4. Bacteria from the group 5 to be recognised are specifically bound to the bacteriophage tail proteins 1. (2B): after a washing step the bound bacteria 5 are detected by means of strain-specific bacteriophages 7, 8, 9 which are coupled to an enzyme 6, for example peroxidase. hv denotes signal development which can be implemented for example by absorption.

[0012]FIG. 3A shows the DNA sequence of the short tail fibres p12 of the phage strain T4D (SEQ ID NO: 2). FIG. 3B shows the amino acid sequence of that variant (SEQ ID NO: 1). The nucleic acid sequence in accordance with SEQ ID NO: 4 and the amino acid sequence in accordance with SEQ ID NO: 3 are underlined. Capitals in the nucleic acid sequence represent base exchanges in relation to wild type sequence T4 p12 (Swiss-Prot. accession number P10930).

[0013] The term “coliform” used herein denotes a subgroup of the enterobacteria which are distinguished in that they utilise lactose and express the enzyme β-galactosidase, respectively.

[0014] The term “bacteria group” used herein denotes a summarization of specific bacteria which can be within a family, or a genus, or a species etc., but can also be spanning.

[0015] The term “derivative” used herein denotes nucleic acid or amino acid sequences which in relation to the comparative sequence exhibit modifications in the form of one or more deletions, substitutions, additions, insertions and/or inversions.

[0016] The term “fragments” used herein denotes parts of amino acid sequences and the nucleic acid sequences coding for those amino acid sequence as long as they exhibit the biological function of the amino acid sequences according to the invention.

[0017] One aspect of the present invention therefore lies in the provision of a method for the simultaneous detection of different bacteria including the following steps: coupling one or more species of bacteriophage tail proteins onto a support, incubating the support coupled with the bacteriophage tail proteins with a sample, optionally removing the sample and the bacteria of the sample which are not bound to the bacteriophage tail proteins, contacting the bacteria bound to the bacteriophage tail proteins with bacteriophages and/or bacteriophage proteins specifically binding the bacteria to be detected, removing the bacteriophages and/or bacteriophage proteins not bound to the bacteria, and performing the detection reaction by means of an enzyme coupled to the specifically binding bacteriophages and/or bacteriophage proteins or by means of an immuno assay. Alternatively detection can be effected by way of (bacterial) cellular enzymes (for example β-galactosidase in the case of coliforms) or also other cell constituents such as nucleic acids, proteins, lipids or sugar components.

[0018] Bacteriophage tail proteins which are specific for the desired bacteria to be detected are used for the method according to the invention. In this respect the bacteriophage tail proteins are specific for a plurality of bacteria species. The bacteria to be detected can be for example entire bacteria families, one or more entire bacteria genera, given bacteria species from a bacteria genus, given bacteria species from a plurality of bacteria genera, or the like. The bacteria to be detected with the method according to the invention can originate for example from the family of enterobacteriaceae. Preferably bacteria are detected from the genus Escherichia, Salmonella, Shigella, Klebsiella, Enterobacter, Citrobacter, Proteus, Serratia, Morganella, Providencia, Yersinia, Hafnia and/or Edwardsiella, particularly preferably from Escherichia, Salmonella, Shigella, Klebsiella, Enterobacter and/or Citrobacter. Further preferably bacteria to be detected are the species Escherichia spec., Salmonella spec., Shigella spec., Klebsiella spec., Enterobacter spec., Citrobacter spec., Proteus spec., Serratia spec., Morganella spec., Providencia spec., Yersinia spec., Hafnia spec., Edwardsiella spec. and/or Pseudomonas spec.

[0019] By way of example it is irrelevant for the user for example in the milk or drinks industry for bacterial contaminations to be characterised serologically and strain-specifically. What is important is only the general information as to whether for example in the production procedure foreign germs had gained access into the installation or germ sterilisation processes were successful. Coliform bacteria serve in that respect generally as a hygiene indicator. Thus a particular embodiment of the method according to the invention is the detection of coliform bacteria, in particular of the genera Escherichia, Salmonella, Shigella, Klebsiella, Enterobacter, Citrobacter, Proteus, Serratia, Morganella, Providencia, Yersinia, and/or Hafnia edwardsiella.

[0020] Which bacteriophage tail proteins are used depends on which bacteria species, groups or families are to be detected. Group-specific detection in accordance with the invention involves using those bacteriophage tail proteins which recognise and bind group-specific receptors. In that case it is possible to use any phage tail protein which has a corresponding recognition spectrum. Preferred phage tail proteins are those from the family of Myoviridae, Podoviridae and Siphoviridae, in particular short phage tail proteins, in particular the short phage tail proteins of the “even-numbered T-phages”, for example of T4, T2 or K3, in particular the bacteriophage tail protein p12 from T4, p12 from T2 (GenBank Accession Number X56555), p12 from K3 (see Burda et al., 2000, Biol. Chem. Vol. 381, pp 255-258), or the bacteriophage tail proteins of the phages felix 01, P1 or PB1. In that respect for example the short bacteriophage tail proteins of the phages T4 (p12) and P1 bind to coliforms, the short phage tail protein of felix 01 binds to Salmonellae and the short phage tail protein of PB1 binds to Pseudomonadae. For example the Salmonellaphage Felix 01 (F01) recognises up to 99% of all Salmonellae and can be used for group-specific Salmonella detection. The bacteriophage tail proteins of PB1 can be used for group-specific Pseudomonada detection.

[0021] How the bacteriophage tail proteins are intended to bind to the individual bacteria is to be made clear here by way of example with reference to the “even-numbered T-phages” for example T4, T2 and K3. In this group on the host side there are two components which are recognised by the phages: firstly a surface protein which is specific for individual phages and secondly the lipopolysaccharide (LPS) which all gram-negative bacteria have in modified form. The long tail fibres of the “even-numbered T-phages” play a part in specific recognition of the host bacteria while the LPS serves as a receptor for the short tail fibres. It is known in regard to E. coli phages T4 that the specific interaction afforded by the long tail fibres with the host bacterium becomes irreversible as soon as the short tail fibres have also bound to the bacteria surface. The short tail fibre is not responsible for precise specificity within the host bacteria group and can therefore be interchanged between the various “even-numbered T-phages”.

[0022] The short tail fibres are involved together with the tail pins in the so-called pinning step in which irreversible binding of the phage to LPS takes place on the host surface. p12 requires for binding to LPS a structure of heptose sugars with at least one α-bound glucose, as is to be found in the inner core zone of the cell wall of enterobacteria. Differing phosphorylation of the sugars, as frequently occur, the presence of substitutions with pyrophosphatidylethanolamine or also the branchings of the heptose region do not appear to play any part. Although the lipopolysaccharides of the individual bacteria strains in the O-specific side chains—which is used for serological typing—but also in the outer core regions are very greatly different the variance in the inner core region is very much less pronounced. All enterobacterial core regions have for example the following two sugars: 3-desoxy-D-manno-octuronic acid (Kdo) and L-glycero-D-manno-heptopyranose (Hep) which provide the following characteristic oligosaccharide in the inner core zone:

[0023] The central heptose is generally substituted at O3 and carries inter alia in the case of Escherichia coli, as well as in the case of Salmonella enterica, Shigella spp., Hafnia spp., Citrobacter spp. and Erwinia spp., a 1,3-bound αD-glucose. Klebsiella, Proteus and Yersinia have at that position either galactose or an N-acetyl fucosamine and are not recognised by p12. Klebsiella is however recognised for example by the short bacteriophage tail protein of the phage P1.

[0024] Bacteriophage tail proteins, their derivatives, variants or fragments can be produced in easily recombinant fashion in large amounts and isolated. However, for the method according to the invention it is possible to use not only the naturally occurring bacteriophage tail proteins but also their variants. The expression “variants” denotes in accordance with the present invention that the bacteriophage tail proteins have an altered amino acid sequence in relation to the wild type sequence. Naturally occurring variants can be found by conventional screening methods. The variants also further include synthetically produced bacteriophage tail proteins. The synthetically produced polypeptides can be produced for example by targeted or random mutagenesis. Mutagenesis makes it possible to introduce modifications which can be amino acid additions, deletions, substitutions, inversions or insertions. The bacteriophage tail proteins can further have chemical modifications such as for example methylations or acetylations. The modifications can implement an altered and in particular an improved host specificity and also an improved binding property to the matrix, for example can increase the binding of the bacteria to the isolated phage proteins or make it irreversible in order to improve the washing options.

[0025] In addition it is also possible to use two or more bacteriophage tail proteins in a detection method if the bacteria to be detected cannot be detected by a single bacteriophage tail protein. For example it is possible to use the short bacteriophage tail proteins of the phages T4 (p12) and P1 which have a slightly different host spectrum in order at the same time, besides the bacteria genera recognised by both bacteriophage tail proteins Escherichia, Salmonella, Shigella, Citrobacter and Erwinia, to detect the genus Hafnia recognised only by T4 p12 and the genera Klebsiella and Enterobacter recognised only by the short bacteriophage tail protein of the phage P1. In addition for the detection of Salmonellae it may be advantageous to use the short phage tail protein of felix 01 with other bacteriophage tail proteins as at the present time 2500 Salmonella serovars (subtypes of bacteria which can be distinguished on the basis of serological features, for example LPS-variations in the O-antigen) are described. Which bacteriophage tail proteins are used for the detection procedure ultimately depends on which bacteria species, groups or families are to be detected.

[0026] Preferably the bacteriophage tail protein is a variant of the wild type p12 protein in accordance with SEQ ID NO: 1, particularly preferably in accordance with SEQ ID NO: 3. The invention further concerns the nucleic acid sequences in accordance with SEQ ID NO: 2 and 4.

[0027] SEQ ID NO: 1 represents the amino acid sequence of the naturally occurring p12-variant, namely T4D p12. That bacteriophage tail protein has for example a very high level of stability in relation to heat (denaturation central point: 78° C.) and chemical denaturation agents (Burda et al., 2000, Biol. Chem., Vol. 381 pp 255-258).

[0028] It was surprisingly found that a protease-resistant fragment of that p12-variant binds about 10 times more firmly to bacteria cells, in comparison with the complete p12 proteins. In addition the temperature-sensitive N-terminus of the complete p12-variant is broken down by protease digestion so that the protease-resistant fragment has inter alia a greater degree of long-term stability. The amino acid sequence of the protease-resistant fragment is listed in SEQ ID NO: 3, the nucleic acid sequence in SEQ ID NO: 4. An aspect of the present invention therefore concerns the amino acid sequence in accordance with SEQ ID NO: 3 or the derivatives thereof, and the nucleic acid sequence in accordance with SEQ ID NO: 4 or derivatives thereof. A further aspect of the present invention further concerns fragments and derivatives thereof in accordance with SEQ ID NO: 1, preferably with the sequence of the amino acid radicals 1-500, 1-450, 40-500, 40-450, 270-400, 270-390, 280-400 and 280-390, particularly preferred is the fragment in accordance with SEQ ID NO: 3 as well as the nucleic acid sequences coding for the respective fragments and derivatives.

[0029] A further aspect of the present invention concerns poly- and monoclonal antibodies against the amino acid sequence in accordance with SEQ ID NO: 3.

[0030] For the detection procedure according to the invention the bacteriophage tail proteins are immobilised on suitable support structures, for example microtiter plates, test strips, slides, wafers, filter materials or through-flow cell chambers. The support structures can for example comprise polystyrene, polypropylene, polycarbonate, PMMA, cellulose acetate, nitrocellulose, glass or silicon wafer. Immobilisation can be achieved for example by adsorption or covalent bonding. What is important in that respect is functional immobilisation, that is to say bacteriophage tail proteins have structures accessible for bacteria, in spite of the binding to the support material.

[0031] For suppressing a non-specific reaction of the bacteria to be investigated with the support material it is possible to implement blocking with bovine serum albumin or Tween 20 or similar substances known from the ELISA region, for example milk powder. In addition to enhance the efficiency of adsorption the support systems can be pre-coated with suitable proteins (for example specific antibodies against phage proteins or non-specific proteins such as for example bovine serum albumin), peptides, saccharides (for example mono-, oligo- or polysaccharides) or detergents (for example Tween 20 or octylglucoside). Those coatings can be produced for example either overnight at a temperature in the range of 4-20° C. or in 2-4 h at 30-65° C. Then the excess liquid is removed and the support structure dried at about 60-70° C. The base coating is intended on the one hand to ensure adsorption of the bacteriophage tail proteins and on the other hand to prevent non-specific adsorption of the test bacteria to the support structure in order to enhance the level of test efficiency.

[0032] Subsequently to the base coating the bacteriophage tail proteins are applied. For that purpose an aqueous buffered solution of the bacteriophage tail proteins is applied to the pretreated support structure. After adsorption for example at 4-20° C. overnight or at 30-65° C. for 2-4 h the coating solution is removed and the support structure dried as described above. In order to increase the level of coating efficiency it is possible subsequently to implement covalent fixing of the bacteriophage tail proteins with chemical crosslinkers such as for example glutaraldehyde.

[0033] Immobilisation of the bacteriophage tail proteins to the support material by means of adsorption can be effected by incubation of a phage solution in aqueous buffer, for example 100 mM tris ph 7.3 or 100 mM sodium phosphate ph 7.5, over several hours or overnight at between 5° C. and 45° C., preferably at between 15° C. and 37° C., particularly preferably at between 20° C. and 37° C., particularly preferably at ambient temperature.

[0034] In addition the bacteriophage tail proteins do not have to be immobilised directly on the support but can bind to polypeptides which in turn were immobilised on the support. Those polypeptides can be, being specific for the bacteriophage tail proteins, antibodies, lectins, receptors or anticalins. In addition the bacteriophage tail proteins can be linked to low-molecular substances, for example biotin, in order by way of those low-molecular substances to bind to polypeptides, for example streptavidin, which in turn were immobilised on the support. In that respect, as described hereinbefore, in regard to the bacteriophage tail proteins, the other polypeptides can bind to the support.

[0035] In regard to covalent coupling the bacteriophage tail proteins can be coupled for example by way of primary amino groups or carboxyl groups to support materials already activated by the manufacturer, for example microtiter plates from Nunc, Xenobind or Costar, by way of standard conditions, for example —NH₂ by way of cyanuryl chloride (Russian Chemical Rev., 1964, 33: 92-103), or —COO⁻ by way of EDC (1-ethyl-3′[3′-dimethylaminopropyl]carbodiimide) (Anal. Biochem. 1990, 185: 131-135). In addition the support materials can be directly activated with suitable procedures. One possibility which is preferred by virtue of the applicability for a wide spectrum of support materials is silanisation of the support material. For example silanisation in the case of polystyrene can be implemented by flame pyrolysis. Suitable bonding agents are then applied, which permit coupling by way of for example primary amino groups or carboxyl groups.

[0036] For binding of the bacteria to be investigated to the immobilised bacteriophage tail proteins the sample being investigated is brought into contact in aqueous form with the bacteriophage tail proteins and incubated. Incubation is effected at a temperature in the range of between 4° and 90° C., preferably at a temperature in the range of between 4° and 45° C., particularly preferably at a temperature in the range of between 15° and 37° C., especially preferably at a temperature in the range of between 20° and 37° C., more particularly at ambient temperature, for up to 6 hours, preferably up to 4 hours, particularly preferably 2 hours, in particular 1 hour, particularly preferably between 1 and 20 minutes. For example incubation can be effected for between 2 and 120 minutes at between 4° and 37° C., preferably for between 20 and 30 minutes at 25° C. or 37° C., particularly preferably for 35 minutes at 37° C. After specific recognition and firm binding of the bacteria non-specifically bound material can be removed by washing with aqueous buffer, for example with PBS or PBS-Tween, preferably at a neutral pH-value, for example with 50 mM sodium phosphate, pH 7.0. It is possible to add to the buffers used, optionally, for increasing the washing efficiency, detergents, for example Tween 20, Triton X 100 or chaotropic agents, for example guanidinium hydrochloride or urea. That washing step can be repeated a plurality of times depending on the sample material.

[0037] After separation of non-specifically bound material the membrane of the bound bacteria can be permeabilised or if necessary (depending on the detection assay used) destroyed by the addition of detergents (for example sodium dodecylsulphate, octylglucoside), chemicals (for example Polymyxin B), pore-forming polypeptides (for example Nisin, Holin, Mellitin) or proteins (for example Lysozyme). That membrane permeabilisation operation can be carried out for between 5 and 10 minutes at a temperature in the range of between about 100 and 50° C. The bound bacteria are then detected.

[0038] For detection of the bacteria bound to the bacteriophage tail proteins it is possible to use specific antibodies, bacteriophages or bacteriophage tail proteins. Preferably bacteriophages or bacteriophage tail proteins are used.

[0039] Specific bacteriophages or a combination of various bacteriophages can be used for the detection procedure if one or more bacteria species are to be specifically detected. For example the coliform bacteria present in a sample are bound by the immobilised bacteriophage tail proteins. Then, by means of specific bacteriophages, it is possible to detect individual bacteria species or a plurality of bacteria species can be detected by means of a combination of different bacteriophages. The bacteriophage tail proteins which are immobilised to the matrix are particularly preferably used in order to bind the bacteria to be detected. For the detection procedure, a marking, for example FITC, peroxidase or alkaline phosphatase, is coupled to the antibodies, bacteriophages or bacteriophage tail proteins, wherein signal development of the marking can be photometrically pursued after addition of a substrate. The genes for the bacteriophage tail proteins can be cloned in suitable expression vectors and in that way additionally modified according to the respective use involved, for example by fusion with a detection enzyme. Alternatively detection can be implemented by way of (bacterial) cellular enzymes (for example β-galactosidase in the case of coliforms) or also other cell constituents such as nucleic acids, proteins, lipids or sugar components.

[0040] Depending on the requirement involved for example fluorescence, luminescence, absorption or circular dichroism, conductivity or capacitance variations in the respective probes are detected in the appropriate standard measuring apparatuses. A calibration straight line can be implemented with suitable standard molecules for exact determination of concentration of the bacteria.

[0041] Detection of the bacteria bound to bacteriophage tail proteins can also be implemented by the use of a colorimetric test. In that case for example NADH, β-galactosidase activity or inorganic phosphate is detected. Those tests permit the detection of at least 10⁴ cells per ml, by using fluorescence dyes the level of sensitivity can be improved to between 10² and 10³ cells per ml. The calorimetric tests can generally be used for detection of the activity of intracellular, membraneous or periplasmatic enzymes or cell constituents.

[0042] The calorimetric tests can be the same for all bacteria to be investigated, but they can also be specific for given bacteria/bacteriophage tail protein combinations. The choice of the marking for example of the enzyme or fluorescence marker used can be adapted to the respective bacteria genus or bacteria species under test.

[0043] A further aspect of the invention thus concerns a kit for the detection of bacteria, including a support with immobilised bacteriophage tail proteins and the solutions, with the assay reagents, which are necessary for detection of the bound bacteria. The supports can be all the above-described supports to which the bacteriophage tail proteins are immobilised as described above. The solutions with the assay reagents also correspond to the substances which are described for the detection of the bacteria in the method according to the invention. The kit can also optionally include washing solutions and enzymes or detergents which are required for breaking up the bacterial membrane.

[0044] The following examples explain the invention and are not to be considered as limiting it. Unless otherwise specified molecular-biological standard methods are employed, as described for example by Sambrook et al., 1989, Molecular cloning: A Laboratory Manual, second edition, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.

EXAMPLE 1 Isolation and Cloning of T4D p12, K3 p12 and T2 p12

[0045] T4D p12, K3 p12 and T2 p12 were isolated and cloned as described in Burda et al., 2000, Biol. Chem., Vol. 381, pp 255-258. T4D p12 was suitably cleaned up and used with Freund's adjuvant for the immunisation of rabbits. The polyclonal antiserum obtained detected both the T4D p12 and also the protease-resistant domain.

EXAMPLE 2 Protease Digestion of T4D p12 and Recombinant Production

[0046] The protease-resistant domain of p12 was obtained by protease digestion at various temperatures (see Chen & King, 1991, Danner et al., 1993) and then cleaned by conventional gel filtration chromatography. The N-terminus was determined by Edman decomposition and the C-terminus was analysed by mass spectrometry. For the DNA sequence of the domain obtained the terminal primers were furnished with a start and a stop codon. In a conventional PCR with the cDNA of the T4D p12 variant cDNA of the protease-resistant domain was amplified and then cloned into a vector. That mutant was then expressed in E. coli BL21 DE3 as a native trimer and isolated from the membrane fraction by EDTA extraction (see Burda & Miller, 1999, Eur. J. Biochem. 265, 771-778), the extractions being implemented in the presence of at least 100 mM EDTA.

EXAMPLE 3 Group-Specific Detection by Way of the Bacterial α-Galactosidase

[0047] For that purpose p12 (300 ng/well in 150 μl 100 mM PBS (4 mM KH₂PO₄, 16 mM Na₂PO₄, 115 mM NaCl); 96 well plate) was immobilised on a support system, a polystyrene microtiter plate, by adsorption at 37° C. in different periods of time (1 h, 2 h, 4 h, 16 h, 48 h) and the support was then blocked either with 1% BSA or 1% BSA, 0.5% Tween 20 in 100 mM PBS for 60 minutes. Various sample substances with bacteria (E. coli spec., Citrobacter spec., in LB-medium, milk or liquid manure) were incubated therewith (60 min, 370), then the sample was removed by washing with PBS (3-4× with 100 mM PBS, 0.5% Tween 20, in each case 250 μl for LB-medium, and milk, for liquid manure 4-6×) and the bound bacteria were detected by way of the bacterial β-galactosidase with β-Gal-Luminol (Tropix, Applied Biosystems) in accordance with the manufacturer's directions. Depending on the choice of substrate the assay permits a level of sensitivity of below 100 cells/ml in a total of less than 4 hours.

EXAMPLE 4 Group-Specific Detection by Way of Markers

[0048] For that purpose p12 (300 ng/well in 150 μl 100 mM PBS (4 mM KH₂PO₄, 16 mM Na₂PO₄, 115 mM NaCl); 96 well plate) was immobilised on a support system, a polystyrene microtiter plate, by adsorption at 37° C. in different periods of time (1 h, 2 h, 4 h, 16 h, 48 h) and the support was then blocked either with 1% BSA or 1% BSA, 0.5% Tween 20 in 100 mM PBS for 60 minutes. Various sample substances with bacteria (E. coli spec., Citrobacter spec., in LB-medium, milk or liquid manure) were incubated therewith (60 min, 370), then the sample was removed by washing with PBS (3-4× with 100 mM PBS, 0.5% Tween 20, in each case 250 μl for LB-medium, and milk, for liquid manure 4-6×). Then biotinylated phage tail protein was coupled to peroxidase coupled to streptavidin. That complex was given to the bound bacteria and incubated for various periods of time (10 min, 20 min, 30 min, 60 min). After washing, 3-4× with 100 mM PBS, 0.5% Tween 20, in each case 250 μl, the bound bacteria were detected using the ECL kit from Amersham in accordance with the manufacturer's directions. In that way below 1000 cells per ml were detected.

1 4 1 527 PRT Artificial Sequence Description of Artificial Sequence Synthetic Peptide 1 Met Ser Asn Asn Thr Tyr Gln His Val Ser Asn Glu Ser Arg Tyr Val 1 5 10 15 Lys Phe Asp Pro Thr Asp Thr Asn Phe Pro Pro Glu Ile Thr Asp Val 20 25 30 His Ala Ala Ile Ala Ala Ile Ser Pro Ala Gly Val Asn Gly Val Pro 35 40 45 Asp Ala Ser Ser Thr Thr Lys Gly Ile Leu Phe Leu Ala Thr Glu Gln 50 55 60 Glu Val Ile Asp Gly Thr Asn Asn Thr Lys Ala Val Thr Pro Ala Thr 65 70 75 80 Leu Ala Thr Arg Leu Ser Tyr Pro Asn Ala Thr Glu Ser Val Tyr Gly 85 90 95 Leu Thr Arg Tyr Ser Thr Asp Asp Glu Ala Ile Ala Gly Val Asn Asn 100 105 110 Glu Ser Ser Ile Thr Pro Ala Lys Phe Thr Val Ala Leu Asn Asn Val 115 120 125 Phe Glu Thr Arg Val Ser Thr Glu Ser Ser Asn Gly Val Ile Lys Ile 130 135 140 Ser Ser Leu Pro Gln Ala Leu Ala Gly Ala Asp Asp Thr Thr Ala Met 145 150 155 160 Thr Pro Leu Lys Thr Gln Gln Leu Ala Val Lys Leu Ile Ala Gln Ile 165 170 175 Ala Pro Ser Lys Asn Ala Ala Thr Glu Ser Glu Gln Gly Val Ile Gln 180 185 190 Leu Ala Thr Val Ala Gln Ala Arg Gln Gly Thr Leu Arg Glu Gly Tyr 195 200 205 Ala Ile Ser Pro Tyr Thr Phe Met Asn Ser Thr Ala Thr Glu Glu Tyr 210 215 220 Lys Gly Val Ile Lys Leu Gly Thr Gln Ser Glu Val Asn Ser Asn Asn 225 230 235 240 Ala Ser Val Ala Val Thr Gly Ala Thr Leu Asn Gly Arg Gly Ser Thr 245 250 255 Thr Ser Met Arg Gly Val Val Lys Leu Thr Thr Thr Ala Gly Ser Gln 260 265 270 Ser Gly Gly Asp Ala Ser Ser Ala Leu Ala Trp Asn Ala Asp Val Ile 275 280 285 Gly Gln Arg Gly Gly Gln Thr Ile Asn Gly Thr Leu Arg Ile Asn Asn 290 295 300 Thr Leu Thr Ile Ala Ser Gly Gly Ala Asn Ile Thr Gly Thr Val Asn 305 310 315 320 Met Tyr Gly Gly Tyr Ile Gln Gly Lys Arg Val Val Thr Gln Asn Glu 325 330 335 Ile Asp Arg Thr Ile Pro Val Gly Ala Ile Met Met Trp Ala Ala Asp 340 345 350 Ser Leu Pro Ser Asp Ala Trp Arg Phe Cys His Gly Gly Thr Val Ser 355 360 365 Ala Ser Asp Cys Pro Leu Tyr Ala Ser Arg Ile Gly Thr Arg Tyr Gly 370 375 380 Gly Ser Ser Ser Asn Pro Gly Leu Pro Asp Met Arg Gly Leu Phe Val 385 390 395 400 Arg Gly Ser Gly Arg Gly Ser His Leu Thr Asn Pro Asn Val Asn Gly 405 410 415 Asn Asp Gln Phe Gly Lys Pro Arg Leu Gly Val Gly Cys Thr Gly Gly 420 425 430 Tyr Val Gly Glu Val Gln Lys Gln Gln Met Ser Tyr His Lys His Ala 435 440 445 Gly Gly Phe Gly Glu Tyr Asp Asp Ser Gly Ala Phe Gly Asn Thr Arg 450 455 460 Arg Ser Asn Phe Val Gly Thr Arg Lys Gly Leu Asp Trp Asp Asn Arg 465 470 475 480 Ser Tyr Phe Thr Asn Asp Gly Tyr Glu Ile Asp Pro Ala Ser Gln Arg 485 490 495 Asn Ser Arg Tyr Thr Leu Asn Arg Pro Glu Leu Ile Gly Asn Glu Thr 500 505 510 Arg Pro Trp Asn Ile Ser Leu Asn Tyr Ile Ile Lys Val Lys Glu 515 520 525 2 1578 DNA Artificial Sequence Description of Artificial Sequence Synthetic Primer 2 agtaataata catatcaaca cgtttctaat gaatctcgtt atgtaaaatt tgatcctacc 60 gatacgaatt ttccaccgga gattactgat gttcacgctg ctatagcagc catttctcct 120 gctggcgtaa atggagttcc tgatgcatcg tcaacaacaa agggaatttt atttcttgcc 180 actgaacagg aagttataga tggaactaat aataccaaag cagttacacc agcaacgttg 240 gcaacaagat tatcatatcc aaacgcaact gaaagtgttt acggattaac aagatattca 300 accgatgatg aagccattgc cggagttaat aatgaatctt ctataactcc agctaaattt 360 actgttgctc ttaataatgt ttttgaaact cgtgtttcaa ctgaatcatc aaatggggtt 420 attaaaattt catctttacc gcaagcattg gcaggtgcag atgatactac tgcaatgact 480 ccattaaaaa cacaacaatt agctgttaaa ttgattgcgc aaattgctcc ttctaaaaat 540 gctgctacag aatctgagca aggtgtaatt cagttagcta cagtagcaca ggctcgtcag 600 ggaactttaa gagaaggata cgcaatttct ccttatacgt ttatgaattc tactgctact 660 gaagaatata aaggcgtaat taaattagga acgcaatcag aagttaactc gaataatgct 720 tctgttgcgg ttactggagc aactcttaat ggtcgtggtt ctacgacgtc aatgagaggc 780 gtagttaaat taactacaac cgccggttca cagagtggag gcgatgcttc atcagcctta 840 gcttggaatg ctgacgttat ccaccaaaga ggcggtcaaa ctattaatgg aacacttcgc 900 attaataata cgcttacaat agcttcaggt ggggcaaata ttaccggaac agttaacatg 960 actggcggtt atattcaagg taaacgcgtc gtaacacaaa atgaaattga tagaactatt 1020 cctgtcggag ctattatgat gtgggccgct gatagtcttc ctagtgatgc ttggcgtttt 1080 tgccacggtg gaactgtttc agcgtcagat tgtccattat atgcttctag aattggaaca 1140 agatatggcg gaagctcatc aaatcctgga ttgcctgaca tgcgcggtct ttttgttcgt 1200 ggctctggcc gtggctctca tttaacaaat ccaaatgtta atggtaatga ccaatttggt 1260 aaacctagat taggtgtagg ttgtactggt ggatatgttg gtgaagtaca gaaacaacag 1320 atgtcttatc ataaacatgc tggtggattt ggtgagtatg atgattctgg ggcattcggt 1380 aatactcgta gatcaaattt tgttggtaca cgtaaaggac ttgactggga taaccgttca 1440 tacttcacta atgacgggta tgaaattgac ccagcatcac aacgaaattc cagatataca 1500 ttaaatcgtc ctgaattaat tggaaatgaa acacgtccat ggaacatttc tttaaactac 1560 ataattaagg taaaagaa 1578 3 317 PRT Artificial Sequence Description of Artificial Sequence Synthetic Peptide 3 Leu Ser Tyr Pro Asn Ala Thr Glu Ser Val Tyr Gly Leu Thr Arg Tyr 1 5 10 15 Ser Thr Asp Asp Glu Ala Ile Ala Gly Val Asn Asn Glu Ser Ser Ile 20 25 30 Thr Pro Ala Lys Phe Thr Val Ala Leu Asn Asn Val Phe Glu Thr Arg 35 40 45 Val Ser Thr Glu Ser Ser Asn Gly Val Ile Lys Ile Ser Ser Leu Pro 50 55 60 Gln Ala Leu Ala Gly Ala Asp Asp Thr Thr Ala Met Thr Pro Leu Lys 65 70 75 80 Thr Gln Gln Leu Ala Val Lys Leu Ile Ala Gln Ile Ala Pro Ser Lys 85 90 95 Asn Ala Ala Thr Glu Ser Glu Gln Gly Val Ile Gln Leu Ala Thr Val 100 105 110 Ala Gln Ala Arg Gln Gly Thr Leu Arg Glu Gly Tyr Ala Ile Ser Pro 115 120 125 Tyr Thr Phe Met Asn Ser Thr Ala Thr Glu Glu Tyr Lys Gly Val Ile 130 135 140 Lys Leu Gly Thr Gln Ser Glu Val Asn Ser Asn Asn Ala Ser Val Ala 145 150 155 160 Val Thr Gly Ala Thr Leu Asn Gly Arg Gly Ser Thr Thr Ser Met Arg 165 170 175 Gly Val Val Lys Leu Thr Thr Thr Ala Gly Ser Gln Ser Gly Gly Asp 180 185 190 Ala Ser Ser Ala Leu Ala Trp Asn Ala Asp Val Ile His Gln Arg Gly 195 200 205 Gly Gln Thr Ile Asn Gly Thr Leu Arg Ile Asn Asn Thr Leu Thr Ile 210 215 220 Ala Ser Gly Gly Ala Asn Ile Thr Gly Thr Val Asn Met Thr Gly Gly 225 230 235 240 Tyr Ile Gln Gly Lys Arg Val Val Thr Gln Asn Glu Ile Asp Arg Thr 245 250 255 Ile Pro Val Gly Ala Ile Met Met Trp Ala Ala Asp Ser Leu Pro Ser 260 265 270 Asp Ala Trp Arg Phe Cys His Gly Gly Thr Val Ser Ala Ser Asp Cys 275 280 285 Pro Leu Tyr Ala Ser Arg Ile Gly Thr Arg Tyr Gly Gly Ser Ser Ser 290 295 300 Asn Pro Gly Leu Pro Asp Met Arg Gly Leu Phe Val Arg 305 310 315 4 951 DNA Artificial Sequence Description of Artificial Sequence Synthetic Primer 4 ttatcatatc caaacgcaac tgaaagtgtt tacggattaa caagatattc aaccgatgat 60 gaagccattg ccggagttaa taatgaatct tctataactc cagctaaatt tactgttgct 120 cttaataatg tttttgaaac tcgtgtttca actgaatcat caaatggggt tattaaaatt 180 tcatctttac cgcaagcatt ggcaggtgca gatgatacta ctgcaatgac tccattaaaa 240 acacaacaat tagctgttaa attgattgcg caaattgctc cttctaaaaa tgctgctaca 300 gaatctgagc aaggtgtaat tcagttagct acagtagcac aggctcgtca gggaacttta 360 agagaaggat acgcaatttc tccttatacg tttatgaatt ctactgctac tgaagaatat 420 aaaggcgtaa ttaaattagg aacgcaatca gaagttaact cgaataatgc ttctgttgcg 480 gttactggag caactcttaa tggtcgtggt tctacgacgt caatgagagg cgtagttaaa 540 ttaactacaa ccgccggttc acagagtgga ggcgatgctt catcagcctt agcttggaat 600 gctgacgtta tccaccaaag aggcggtcaa actattaatg gaacacttcg cattaataat 660 acgcttacaa tagcttcagg tggggcaaat attaccggaa cagttaacat gactggcggt 720 tatattcaag gtaaacgcgt cgtaacacaa aatgaaattg atagaactat tcctgtcgga 780 gctattatga tgtgggccgc tgatagtctt cctagtgatg cttggcgttt ttgccacggt 840 ggaactgttt cagcgtcaga ttgtccatta tatgcttcta gaattggaac aagatatggc 900 ggaagctcat caaatcctgg attgcctgac atgcgcggtc tttttgttcg t 951 

1. Method for the simultaneous detection of different bacteria, comprising the steps a) coupling one or more species of bacteriophage tale proteins onto a support, b) incubating said support coupled with said bacteriophage tale proteins with a sample, c) optionally removing said probe and the bacteria not bound to said bacteriophage tale proteins, d) contacting of the bacteria bound to said bacteriophage tale proteins with bacteriophages and/or bactereriophage proteins, specifically binding the bacteria to be detected, e) removing said bacteriophages and/or bacteriophage proteins not bound to the bacteria, f) performing the detection reaction by means of an enzyme coupled to said specifically bound bacteriophages and/or bacteriophage proteins or by means of an immuno assay.
 2. Method according to claim 1, whereas instead of step f) the following steps are performed f′) optionally adding substances which permeate or destroy the bacterial membrane, and g) performing the detection reaction by means of cellular (bacterial) enzymes or other cellular constituents.
 3. Method according to claim 2, whereas the cellular (bacteria) enzyme is β-galactosidase and the cellular constituents are nucleic acids, proteins, lipids or sugar residues.
 4. Method according to any one of claims 1 to 3, whereas said bacteriophage tale proteins are coupled to said support via adsorption, via chemical binding or via further proteins.
 5. Method according to any one of claims 1 to 4, whereas said bacteriophage tale proteins are biotinylated and bound via Streptavidin or Streptavidin/Avidin variants.
 6. Method according to any one of claims 1 to 5, whereas said bacteriophage tale proteins are T4 p12, T2 p12, K3 p12 or the short bacteriophage tale proteins of the phage Felix 01, P1 or PB 1 or derivatives or fragments thereof.
 7. Method according to any one of claims 1 to 6, whereas said bacteriophage tale proteins exhibit the amino acid sequence according to SEQ ID NO: 1 or
 3. 8. Method according to any one of claims 1 to 7, whereas said bacteriophage tale proteins exhibit modifications.
 9. Method according to any one of claims 1 to 8, whereas said bacteriophage tale proteins of one or more phage species detect at least two different bacterial species and/or geni.
 10. Method according to any one of claims 1 to 9, whereas said support is a microtiter plate, a test strip, slide, wafer, filter material or a flow through cell chamber, and composed of polystyrene, polypropylene, polycarbonate, PMMA, cellulose acetate, nitrocellulose, glas or silicium wafer.
 11. Use of the method according to any one of claims 1 to 10 for the detection of bacteria in medicine, food industry and analytics, animal breeding, drinking water analytics or environmental analytics.
 12. Kit for performing the method according to any one of claims 1 to 11, comprising a support with immobilized bacteriophage tale proteins and assay reagents for the detection of bound bacteria.
 13. Kit according to claim 12, further comprising washing solutions and/or substances permeating or destroying the bacterial membrane.
 14. Amino acid sequence according to SEQ ID NO:3 and fragments and derivatives thereof.
 15. Nucleic acid sequence according to SEQ ID NO:4 and fragments and derivatives thereof. 